RetrogeneDB ID: retro_ttru_1695

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_86229:3899..4153(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000000144
• Aliases: None
• Description: None

Sequence

>retro_ttru_1695
GAGGCCGCAGCACGGCCAGAGAAAGCCATCGCGTTCGCCTACAGGCTCTGCGCCGTGGACACGGACGGGGTGGAGCCCGT
GCAGTCAGTCCTGGAGGATGCATGTCTGTGCTTAAGATCCGACAACGTGGCAGAAGGCAACTGTGCCAAAGAACTGCTAC
AAAACTCCCGTCGAGATGTGGAGGAGTATTTTGTGGCCCCCCAGGTCGTATGTCTTGGCCAAAGCTAGATGGAAAAGAGC
CCCTCTCACACTGC

Alignment

ORF - retro_ttru_1695 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.23 %
• Parental protein coverage: 62.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EAVARLEKAIAFADRLRAVDTDGVEPMESVLEDRCLYLRSDNVVEGNCAEELLQNSHRVVEEYFVA-PPG
          EA.AR.EKAIAFA.RL.AVDTDGVEP..SVLED.CL.LRSDNV.EGNCA.ELLQNS.R.VEEYFVA.PPG
Retrocopy EAAARPEKAIAFAYRLCAVDTDGVEPVQSVLEDACLCLRSDNVAEGNCAKELLQNSRRDVEEYFVA<PPG

Parental  NISWPKLDEKEPFSHC
          ..SWPKLD.KEP.SHC
Retrocopy RMSWPKLDGKEPLSHC

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1695 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1695 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013298	1 retrocopy	retro_amel_1364,
Equus caballus	ENSECAG00000011118	1 retrocopy	retro_ecab_462,
Felis catus	ENSFCAG00000024015	1 retrocopy	retro_fcat_1279,
Homo sapiens	ENSG00000257218	1 retrocopy	retro_hsap_3902,
Nomascus leucogenys	ENSNLEG00000015651	1 retrocopy	retro_nleu_1140,
Oryctolagus cuniculus	ENSOCUG00000009867	2 retrocopies	retro_ocun_585, retro_ocun_858,
Ochotona princeps	ENSOPRG00000004226	1 retrocopy	retro_opri_1008,
Pongo abelii	ENSPPYG00000005030	1 retrocopy	retro_pabe_3181,
Pan troglodytes	ENSPTRG00000005534	1 retrocopy	retro_ptro_2655,
Sus scrofa	ENSSSCG00000009907	1 retrocopy	retro_sscr_746,
Tarsius syrichta	ENSTSYG00000006845	1 retrocopy	retro_tsyr_1219,
Tursiops truncatus	ENSTTRG00000000144	1 retrocopy	retro_ttru_1695 ,